Plant Circular RNA Database

Detail information of Zm00001d007500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d007500_circ_g.2
					
						ID in PlantcircBase
						zma_circ_004066
					
						Alias
						ovule_test_circ_003218
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 233350905-233352816  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d007500						
					
						Parent gene annotation
						
							Replication factor C subunit 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						ovule
					
						Exon boundary  
						
							No-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-TA							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Zm00001d007500_T051:2
Zm00001d007500_T014:3
Zm00001d007500_T046:4
Zm00001d007500_T047:3
Zm00001d007500_T032:4
Zm00001d007500_T038:3
Zm00001d007500_T012:4
Zm00001d007500_T036:3
Zm00001d007500_T011:4
Zm00001d007500_T024:3
Zm00001d007500_T034:4
Zm00001d007500_T018:3
Zm00001d007500_T007:4
Zm00001d007500_T010:2
Zm00001d007500_T030:4
Zm00001d007500_T001:3
Zm00001d007500_T050:2
Zm00001d007500_T021:3
Zm00001d007500_T033:3
Zm00001d007500_T017:3
Zm00001d007500_T026:3
Zm00001d007500_T008:4
Zm00001d007500_T044:4
Zm00001d007500_T049:4
Zm00001d007500_T003:3
Zm00001d007500_T041:3
Zm00001d007500_T029:3
Zm00001d007500_T048:4
Zm00001d007500_T022:3
Zm00001d007500_T005:3
Zm00001d007500_T043:4
Zm00001d007500_T013:3
Zm00001d007500_T019:3

General Information
CircRNA Name	Zm00001d007500_circ_g.2
ID in PlantcircBase	zma_circ_004066
Alias	ovule_test_circ_003218
Organism	Zea mays
Position	chr2: 233350905-233352816 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	find_circ
Parent gene	Zm00001d007500
Parent gene annotation	Replication factor C subunit 1
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	ovule
Exon boundary	No-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-TA The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Zm00001d007500_T051:2 Zm00001d007500_T014:3 Zm00001d007500_T046:4 Zm00001d007500_T047:3 Zm00001d007500_T032:4 Zm00001d007500_T038:3 Zm00001d007500_T012:4 Zm00001d007500_T036:3 Zm00001d007500_T011:4 Zm00001d007500_T024:3 Zm00001d007500_T034:4 Zm00001d007500_T018:3 Zm00001d007500_T007:4 Zm00001d007500_T010:2 Zm00001d007500_T030:4 Zm00001d007500_T001:3 Zm00001d007500_T050:2 Zm00001d007500_T021:3 Zm00001d007500_T033:3 Zm00001d007500_T017:3 Zm00001d007500_T026:3 Zm00001d007500_T008:4 Zm00001d007500_T044:4 Zm00001d007500_T049:4 Zm00001d007500_T003:3 Zm00001d007500_T041:3 Zm00001d007500_T029:3 Zm00001d007500_T048:4 Zm00001d007500_T022:3 Zm00001d007500_T005:3 Zm00001d007500_T043:4 Zm00001d007500_T013:3 Zm00001d007500_T019:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							AAGTTTTATAGTTCTTGAGAACTGCAGGGATGCATTGAGGTTGGATTATCTTACTCTTATCTTG
AGAGAGCTGACTGACCCACTGAAAAAAATGTCAAAGggaaaattatatcaattatcggcctaac
accatcggcaaggatgaaagtggagttaaaagaatgaatgctttagcccgggctgctgaatcta
tagcggac

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							GGAAAATTATATCAATTATCGGCCTAACACCATCGGCAAGGATGAAAGTGGAGTTAAAAGAATG
AATGCTTTAGCCCGGGCTGCTGAATCTATAGCGGACGGTGATCTTGTTAATGTACAGATAAGAA
GATATCGACAGTGGCAGCTGTCACAAGCTGCTTGTTTTGCTTCATCTATAGTACCGTAAGTATT
GATCAGGGTCATAGTTCATTATATATGTTAGCATTGGTATTACTTTATTTTGAATTTGCCAACC
TGGTTTCTAACCTTGCACATTTTACAGTGCCGCTTTGATGCATGGGAACAGAGAAATCCTTGAA
GCAGTAATGTTCAAACACCTAACTGACACTATATTTAATATATTACTTCAGCTTATTGGGCTAA
ATTAAGTTGGGTAACAAATACATTTCAGGGTGAGCGAAACTTTAATAGGTTTGGTGGATGGTTG
GGTAAGTACTCGACTACTAACAAAAACAGAAGGCTACTGGAAGATGTCCACAGTCATATTCTTG
CCTCCCAGCAAGCAAACTTGGACAGGTTGTTGCTTTTACATATATTTGAGATCTACCTGTGCCT
TCTTTCATGGCTTGTGCTTATTGTCACATATCTGATTTGTTATTAGTGTGCCGGTATGGTATTG
CGAGGCTATCCGTTTTCTTATCTGGACATGTCCTGAATCTGCACTTATTTCAGTTTTTTGTATC
TTTGTTTTAGACCTCCTTAGGAGGTTTCCCTTGTATCCGAGTCCATTTTGGACTTTCTCTACTT
GCTTCTTAATATAATCATGCGCAGCTCTCCTGCGCGTTCGAAAAAAAAAACTGCACTTATTATG
TATTTTTTGTGTGCAAAATCTCAGCAATCTTTTTCTGGTTGTAAATATGGTTTTGAATGGTACT
TTTTTCTTTGGCAAGTATAAGACTTAGATTCCATAAGAGGTAAATGGTTTGACTAATCCAATTG
ACTGGAGCTAAATGATTGGTAGCCAATCCACACACTTTTTGTGTCATCGCTCTCTAAAGGGAAA
AGATTGTTTCACAGTGCCATTTTGAGTGAAGAGGAATAACGTTACTAGATATTTTCTAAAGCCA
GATTATTTCATACTGAATTTTGTTTCCTTAAATTGAGGTTATGAGGAATAACCATGGATATCCT
GAACATCAGCCCAAGAGCCATGTTCAGGTGTGGTACTGGTACATAGCAGGGTGGTGGTACAAAT
TGTCTTACATTTTTTTGAACCTACAGAACTCAATCCAACTCTTTTTGACTAGTTTCTTAGCAGC
AGAGATCTACTATATTCAAAATACCACCTCAATATTCAGCAGTATTCAATTATTCATATGATAA
GGTCCTTGATGGTCACTTCTACTTATGCTATATATCACTACGCCAGAGCAATATTTATGCAATG
ATTTTTTTTCATGGAATTTTGTTCAATTAGGAACCAGATCTAAATTTCTGACATCATGCTCCTT
TTCTGATATAATTGGTTTGAAATGGGTACCCAGTACAGTGATCAGAATTAATAGCTAGCTAGCA
ACTTTTAGTTGCTTGCTATCCGTTAAAGCTAGCTGCTAACTCTAATTGCTAGCAACCAATTTGT
TAGTTAACAACTTAACATGCTTCCTTGAGATCCCGAAGATAAAATATTGTTCTATTCTAAATTA
TGAGGATTGAGGATTGAAGAAATTAGCCATTGGTTTGTGTACTTTTGTTGTGTCAGAACTGACA
AATTTCGTGAATGTTTTTTCCTGTTGTAACTTTCAATAGTTGAATGATGTCCAAACTTTTAAGT
GATTGTTTATTATGGCTCTTAAGTTTTATAGTTCTTGAGAACTGCAGGGATGCATTGAGGTTGG
ATTATCTTACTCTTATCTTGAGAGAGCTGACTGACCCACTGAAAAAAATGTCAAAG
						
					

			
		

Sequences
Splice junction sequence	AAGTTTTATAGTTCTTGAGAACTGCAGGGATGCATTGAGGTTGGATTATCTTACTCTTATCTTG AGAGAGCTGACTGACCCACTGAAAAAAATGTCAAAGggaaaattatatcaattatcggcctaac accatcggcaaggatgaaagtggagttaaaagaatgaatgctttagcccgggctgctgaatcta tagcggac
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	GGAAAATTATATCAATTATCGGCCTAACACCATCGGCAAGGATGAAAGTGGAGTTAAAAGAATG AATGCTTTAGCCCGGGCTGCTGAATCTATAGCGGACGGTGATCTTGTTAATGTACAGATAAGAA GATATCGACAGTGGCAGCTGTCACAAGCTGCTTGTTTTGCTTCATCTATAGTACCGTAAGTATT GATCAGGGTCATAGTTCATTATATATGTTAGCATTGGTATTACTTTATTTTGAATTTGCCAACC TGGTTTCTAACCTTGCACATTTTACAGTGCCGCTTTGATGCATGGGAACAGAGAAATCCTTGAA GCAGTAATGTTCAAACACCTAACTGACACTATATTTAATATATTACTTCAGCTTATTGGGCTAA ATTAAGTTGGGTAACAAATACATTTCAGGGTGAGCGAAACTTTAATAGGTTTGGTGGATGGTTG GGTAAGTACTCGACTACTAACAAAAACAGAAGGCTACTGGAAGATGTCCACAGTCATATTCTTG CCTCCCAGCAAGCAAACTTGGACAGGTTGTTGCTTTTACATATATTTGAGATCTACCTGTGCCT TCTTTCATGGCTTGTGCTTATTGTCACATATCTGATTTGTTATTAGTGTGCCGGTATGGTATTG CGAGGCTATCCGTTTTCTTATCTGGACATGTCCTGAATCTGCACTTATTTCAGTTTTTTGTATC TTTGTTTTAGACCTCCTTAGGAGGTTTCCCTTGTATCCGAGTCCATTTTGGACTTTCTCTACTT GCTTCTTAATATAATCATGCGCAGCTCTCCTGCGCGTTCGAAAAAAAAAACTGCACTTATTATG TATTTTTTGTGTGCAAAATCTCAGCAATCTTTTTCTGGTTGTAAATATGGTTTTGAATGGTACT TTTTTCTTTGGCAAGTATAAGACTTAGATTCCATAAGAGGTAAATGGTTTGACTAATCCAATTG ACTGGAGCTAAATGATTGGTAGCCAATCCACACACTTTTTGTGTCATCGCTCTCTAAAGGGAAA AGATTGTTTCACAGTGCCATTTTGAGTGAAGAGGAATAACGTTACTAGATATTTTCTAAAGCCA GATTATTTCATACTGAATTTTGTTTCCTTAAATTGAGGTTATGAGGAATAACCATGGATATCCT GAACATCAGCCCAAGAGCCATGTTCAGGTGTGGTACTGGTACATAGCAGGGTGGTGGTACAAAT TGTCTTACATTTTTTTGAACCTACAGAACTCAATCCAACTCTTTTTGACTAGTTTCTTAGCAGC AGAGATCTACTATATTCAAAATACCACCTCAATATTCAGCAGTATTCAATTATTCATATGATAA GGTCCTTGATGGTCACTTCTACTTATGCTATATATCACTACGCCAGAGCAATATTTATGCAATG ATTTTTTTTCATGGAATTTTGTTCAATTAGGAACCAGATCTAAATTTCTGACATCATGCTCCTT TTCTGATATAATTGGTTTGAAATGGGTACCCAGTACAGTGATCAGAATTAATAGCTAGCTAGCA ACTTTTAGTTGCTTGCTATCCGTTAAAGCTAGCTGCTAACTCTAATTGCTAGCAACCAATTTGT TAGTTAACAACTTAACATGCTTCCTTGAGATCCCGAAGATAAAATATTGTTCTATTCTAAATTA TGAGGATTGAGGATTGAAGAAATTAGCCATTGGTTTGTGTACTTTTGTTGTGTCAGAACTGACA AATTTCGTGAATGTTTTTTCCTGTTGTAACTTTCAATAGTTGAATGATGTCCAAACTTTTAAGT GATTGTTTATTATGGCTCTTAAGTTTTATAGTTCTTGAGAACTGCAGGGATGCATTGAGGTTGG ATTATCTTACTCTTATCTTGAGAGAGCTGACTGACCCACTGAAAAAAATGTCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.133727833

Conservation Information
Conserved circRNAs	NA
PMCS	0.133727833

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tang et al., 2018

circRNA

Detail information of Zm00001d007500_circ_g.2

Address

Any questions?

Supported by